Cucsa.059670 (gene) Cucumber (Gy14) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cucsa.059670
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v1)
Description	Ribosomal RNA small subunit methyltransferase E
Location	scaffold00621 : 223274 .. 223755 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDSthree_prime_UTR

Hold the cursor over a type above to highlight its positions in the sequence below.

GTGGTTCATCGGCTGCGCGCGGAGTGTGTTCGATCGGATTTACATCTCCCTTCCACAGTTACAATTTTCTACGATTTCTCCATTTCAATTTAATTTGCGTTACAAAATCATAATTCTCCGCTTACTAGTTGAAACTCGATGGATGGTATAACCGAGAAATCTAGGGCTGTGACGAAGAATCCATCGCCATGTGATGTTGAAGCTCTCAAGAAATGTTTGCAGGAAAATAATGGCGATCGTGTCAAGTGCGAGTCTCAAATACAAGCCTTCATGTTTTCTTGTTCCCTAAAGAAaCCAAATCCATCTTTGCAATCCGGGAGAAATGACTTCGACACCGGTGTTTGATTTCTATCGGCCTTCTGTTCTTTGTTCAAATTTCAAAAaCCCcTTCTTTTATTTGAGTGCAGCAATGAAGAATTTTGCTTACAGATGATTGTAATTGTGCTTTCTTGGCAATAAAAATCTCAATCTTCCATTGCTAA

mRNA sequence

GTGGTTCATCGGCTGCGCGCGGAGTGTGTTCGATCGGATTTACATCTCCCTTCCACAGTTACAATTTTCTACGATTTCTCCATTTCAATTTAATTTGCGTTACAAAATCATAATTCTCCGCTTACTAGTTGAAACTCGATGGATGGTATAACCGAGAAATCTAGGGCTGTGACGAAGAATCCATCGCCATGTGATGTTGAAGCTCTCAAGAAATGTTTGCAGGAAAATAATGGCGATCGTGTCAAGTGCGAGTCTCAAATACAAGCCTTCATGTTTTCTTGTTCCCTAAAGAAACCAAATCCATCTTTGCAATCCGGGAGAAATGACTTCGACACCGGTGTTTGATTTCTATCGGCCTTCTGTTCTTTGTTCAAATTTCAAAAACCCCTTCTTTTATTTGAGTGCAGCAATGAAGAATTTTGCTTACAGATGATTGTAATTGTGCTTTCTTGGCAATAAAAATCTCAATCTTCCATTGCTAA

Coding sequence (CDS)

ATGGATGGTATAACCGAGAAATCTAGGGCTGTGACGAAGAATCCATCGCCATGTGATGTTGAAGCTCTCAAGAAATGTTTGCAGGAAAATAATGGCGATCGTGTCAAGTGCGAGTCTCAAATACAAGCCTTCATGTTTTCTTGTTCCCTAAAGAAaCCAAATCCATCTTTGCAATCCGGGAGAAATGACTTCGACACCGGTGTTTGA

Protein sequence

MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQSGRNDFDTGV*

Homology

[Close]

BLAST of Cucsa.059670 vs. TrEMBL
Match: A0A0A0L2G8_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G081365 PE=4 SV=1)

HSP 1 Score: 140.6 bits (353), Expect = 7.2e-31
Identity = 67/68 (98.53%), Postives = 67/68 (98.53%), Query Frame = 1


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQSG 60
          MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKK NPSLQSG
Sbjct: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60

Query: 61 RNDFDTGV 69
          RNDFDTGV
Sbjct: 61 RNDFDTGV 68

[Close]

BLAST of Cucsa.059670 vs. TrEMBL
Match: A0A067EDM2_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g035370mg PE=4 SV=1)

HSP 1 Score: 81.3 bits (199), Expect = 5.2e-13
Identity = 40/64 (62.50%), Postives = 49/64 (76.56%), Query Frame = 1


Query: 5  TEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQSGRNDF 64
          T +S    K  SPCDVEALKKCL+EN GD VKC+SQI+AF  SCSLKKP+ SL+S +  F
Sbjct: 4  TAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKPSSSLES-KQQF 63

Query: 65 DTGV 69
          ++GV
Sbjct: 64 NSGV 66

[Close]

BLAST of Cucsa.059670 vs. TrEMBL
Match: A0A0S3SEQ9_PHAAN (Uncharacterized protein OS=Vigna angularis var. angularis GN=Vigan.06G265400 PE=4 SV=1)

HSP 1 Score: 78.6 bits (192), Expect = 3.4e-12
Identity = 39/59 (66.10%), Postives = 43/59 (72.88%), Query Frame = 1


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQS 60
          MD     S  V K  S CDVEALKKCL+EN GD VKC++QI+AF  SCSLKKPNPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of Cucsa.059670 vs. TrEMBL
Match: A0A0L9V8P8_PHAAN (Uncharacterized protein OS=Phaseolus angularis GN=LR48_Vigan08g210900 PE=4 SV=1)

HSP 1 Score: 78.6 bits (192), Expect = 3.4e-12
Identity = 39/59 (66.10%), Postives = 43/59 (72.88%), Query Frame = 1


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQS 60
          MD     S  V K  S CDVEALKKCL+EN GD VKC++QI+AF  SCSLKKPNPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of Cucsa.059670 vs. TrEMBL
Match: A0A0B2RGP3_GLYSO (Autophagy-related protein 3 OS=Glycine soja GN=glysoja_026329 PE=3 SV=1)

HSP 1 Score: 78.2 bits (191), Expect = 4.4e-12
Identity = 38/54 (70.37%), Postives = 42/54 (77.78%), Query Frame = 1


Query: 6   EKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQS 60
           + S +V K  S CDVEALKKCL+EN GD VKC SQI+AF  SCSLKKPNPSL S
Sbjct: 335 DDSSSVKKIISACDVEALKKCLEENKGDYVKCHSQIEAFKSSCSLKKPNPSLDS 388

[Close]

BLAST of Cucsa.059670 vs. NCBI nr
Match: gi|700201027|gb|KGN56160.1| (hypothetical protein Csa_3G081365 [Cucumis sativus])

HSP 1 Score: 140.6 bits (353), Expect = 1.0e-30
Identity = 67/68 (98.53%), Postives = 67/68 (98.53%), Query Frame = 1


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQSG 60
          MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKK NPSLQSG
Sbjct: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60

Query: 61 RNDFDTGV 69
          RNDFDTGV
Sbjct: 61 RNDFDTGV 68

[Close]

BLAST of Cucsa.059670 vs. NCBI nr
Match: gi|641832977|gb|KDO52000.1| (hypothetical protein CISIN_1g035370mg [Citrus sinensis])

HSP 1 Score: 81.3 bits (199), Expect = 7.5e-13
Identity = 40/64 (62.50%), Postives = 49/64 (76.56%), Query Frame = 1


Query: 5  TEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQSGRNDF 64
          T +S    K  SPCDVEALKKCL+EN GD VKC+SQI+AF  SCSLKKP+ SL+S +  F
Sbjct: 4  TAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKPSSSLES-KQQF 63

Query: 65 DTGV 69
          ++GV
Sbjct: 64 NSGV 66

[Close]

BLAST of Cucsa.059670 vs. NCBI nr
Match: gi|920709285|gb|KOM51282.1| (hypothetical protein LR48_Vigan08g210900 [Vigna angularis])

HSP 1 Score: 78.6 bits (192), Expect = 4.9e-12
Identity = 39/59 (66.10%), Postives = 43/59 (72.88%), Query Frame = 1


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQS 60
          MD     S  V K  S CDVEALKKCL+EN GD VKC++QI+AF  SCSLKKPNPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of Cucsa.059670 vs. NCBI nr
Match: gi|567858544|ref|XP_006421955.1| (hypothetical protein CICLE_v10006392mg [Citrus clementina])

HSP 1 Score: 78.2 bits (191), Expect = 6.3e-12
Identity = 39/64 (60.94%), Postives = 48/64 (75.00%), Query Frame = 1


Query: 5  TEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQSGRNDF 64
          T +S    K  SPCDVEALKKCL+EN GD VKC+SQI+AF  SCSLKK + SL+S +  F
Sbjct: 4  TAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKASSSLES-KQQF 63

Query: 65 DTGV 69
          ++GV
Sbjct: 64 NSGV 66

[Close]

BLAST of Cucsa.059670 vs. NCBI nr
Match: gi|734403254|gb|KHN32435.1| (Autophagy-related protein 3 [Glycine soja])

HSP 1 Score: 78.2 bits (191), Expect = 6.3e-12
Identity = 38/54 (70.37%), Postives = 42/54 (77.78%), Query Frame = 1


Query: 6   EKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKPNPSLQS 60
           + S +V K  S CDVEALKKCL+EN GD VKC SQI+AF  SCSLKKPNPSL S
Sbjct: 335 DDSSSVKKIISACDVEALKKCLEENKGDYVKCHSQIEAFKSSCSLKKPNPSLDS 388

The following BLAST results are available for this feature:

BLAST of Cucsa.059670 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L2G8_CUCSA	7.2e-31	98.53	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G081365 PE=4 SV=1	[more]
A0A067EDM2_CITSI	5.2e-13	62.50	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g035370mg PE=4 SV=1	[more]
A0A0S3SEQ9_PHAAN	3.4e-12	66.10	Uncharacterized protein OS=Vigna angularis var. angularis GN=Vigan.06G265400 PE=...	[more]
A0A0L9V8P8_PHAAN	3.4e-12	66.10	Uncharacterized protein OS=Phaseolus angularis GN=LR48_Vigan08g210900 PE=4 SV=1	[more]
A0A0B2RGP3_GLYSO	4.4e-12	70.37	Autophagy-related protein 3 OS=Glycine soja GN=glysoja_026329 PE=3 SV=1	[more]

BLAST of Cucsa.059670 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700201027\|gb\|KGN56160.1\|	1.0e-30	98.53	hypothetical protein Csa_3G081365 [Cucumis sativus]	[more]
gi\|641832977\|gb\|KDO52000.1\|	7.5e-13	62.50	hypothetical protein CISIN_1g035370mg [Citrus sinensis]	[more]
gi\|920709285\|gb\|KOM51282.1\|	4.9e-12	66.10	hypothetical protein LR48_Vigan08g210900 [Vigna angularis]	[more]
gi\|567858544\|ref\|XP_006421955.1\|	6.3e-12	60.94	hypothetical protein CICLE_v10006392mg [Citrus clementina]	[more]
gi\|734403254\|gb\|KHN32435.1\|	6.3e-12	70.37	Autophagy-related protein 3 [Glycine soja]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR009069	Cys_alpha_HP_mot_SF

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008152	metabolic process
biological_process	GO:0006810	transport
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0016740	transferase activity

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
Cucsa.059670.1	Cucsa.059670.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (Gy14)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR009069	Cysteine alpha-hairpin motif superfamily	GENE3D	G3DSA:1.10.810.10		coord: 15..46 score: 1.
IPR009069	Cysteine alpha-hairpin motif superfamily	unknown	SSF47072	Cysteine alpha-hairpin motif	coord: 14..45 score: 4.1
None	No IPR available	PANTHER	PTHR36856	FAMILY NOT NAMED	coord: 6..68 score: 5.0

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Cucsa.059670	Cla005269	Watermelon (97103) v1	cgywmB048
Cucsa.059670	MELO3C025428	Melon (DHL92) v3.5.1	cgymeB048
Cucsa.059670	ClCG10G005770	Watermelon (Charleston Gray)	cgywcgB049
Cucsa.059670	CmaCh16G008450	Cucurbita maxima (Rimu)	cgycmaB0080
Cucsa.059670	CmoCh04G010050	Cucurbita moschata (Rifu)	cgycmoB0076
Cucsa.059670	CmoCh16G009170	Cucurbita moschata (Rifu)	cgycmoB0075
Cucsa.059670	Lsi05G006330	Bottle gourd (USVL1VR-Ls)	cgylsiB048
Cucsa.059670	MELO3C025428.2	Melon (DHL92) v3.6.1	cgymedB047
Cucsa.059670	CsaV3_3G005460	Cucumber (Chinese Long) v3	cgycucB046
Cucsa.059670	Cla97C10G189960	Watermelon (97103) v2	cgywmbB048
Cucsa.059670	Bhi11G000525	Wax gourd	cgywgoB049

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cucsa.059670	Cucurbita maxima (Rimu)	cgycmaB0081
Cucsa.059670	Wild cucumber (PI 183967)	cgycpiB044
Cucsa.059670	Cucumber (Chinese Long) v2	cgycuB044
Cucsa.059670	Cucurbita pepo (Zucchini)	cgycpeB0076
Cucsa.059670	Cucurbita pepo (Zucchini)	cgycpeB0077
Cucsa.059670	Silver-seed gourd	carcgyB0738
Cucsa.059670	Silver-seed gourd	carcgyB0904